CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1347

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp31347C1347WC2165WnonsyntgTtgG3044304416758-6760
ORF1ab/nsp31347C1347FC2165FnonsyntGttTt1235123516758-6760
ORF1ab/nsp31347C1347YC2165YnonsyntGttAt18618616758-6760
ORF1ab/nsp31347C1347delC2165deldelTGT---15615616758-6760
ORF1ab/nsp31347C1347CC2165CsyntgTtgC666616758-6760
ORF1ab/nsp31347C1347RC2165RnonsynTgtCgt25240.966758-6760
ORF1ab/nsp31347C1347RC2165RnonsynTgTAgA2510.046758-6760
ORF1ab/nsp31347C1347SC2165SnonsynTgtAgt13100.7692316758-6760
ORF1ab/nsp31347C1347SC2165SnonsyntGttCt1330.2307696758-6760
ORF1ab/nsp31347C1347XC2165XnonsyntgTtgA430.756758-6760
ORF1ab/nsp31347C1347XC2165XnonsyntGTtAG410.256758-6760
ORF1ab/nsp31347C1347GC2165GnonsynTgtGgt320.6666676758-6760
ORF1ab/nsp31347C1347GC2165GnonsynTgTGgG310.3333336758-6760
ORF1ab/nsp31347C1347del1C2165del1delTgt-gt2216758-6760
ORF1ab/nsp31347C1347EC2165EnonsynTGTGAG1116758-6760
ORF1ab/nsp31347C1347AC2165AnonsynTGTGCG1116758-6760

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp31347C1347WtgTtgG30443044All0.000582
ORF1ab/nsp31347C1347WtgTtgG28222822AY.30.028069
ORF1ab/nsp31347C1347FtGttTt12351235All0.000236
ORF1ab/nsp31347C1347FtGttTt551551AY.40.000858
ORF1ab/nsp31347C1347FtGttTt241241AD.10.99177
ORF1ab/nsp31347C1347YtGttAt186186All0.000036
ORF1ab/nsp31347C1347delTGT---156156All0.00003
ORF1ab/nsp31347C1347FtGttTt7171AY.250.000427
ORF1ab/nsp31347C1347delTGT---6767B.1.1.70.00006
ORF1ab/nsp31347C1347CtgTtgC6666All0.000013
ORF1ab/nsp31347C1347WtgTtgG5858AY.1100.006536
ORF1ab/nsp31347C1347FtGttTt4040AY.30.000398
ORF1ab/nsp31347C1347FtGttTt3939B.1.1.70.000035
ORF1ab/nsp31347C1347FtGttTt3939B.1.617.20.000147
ORF1ab/nsp31347C1347YtGttAt3737AY.250.000223
ORF1ab/nsp31347C1347WtgTtgG3030AY.1170.002535
ORF1ab/nsp31347C1347FtGttTt2727AY.440.000164
ORF1ab/nsp31347C1347WtgTtgG2626AY.250.000156
ORF1ab/nsp31347C1347RTgtCgt2425All0.000005
ORF1ab/nsp31347C1347RTgTAgA125All0
ORF1ab/nsp31347C1347WtgTtgG2525B.1.617.20.000094
ORF1ab/nsp31347C1347FtGttTt2323AY.1030.000143
ORF1ab/nsp31347C1347YtGttAt2121AY.98.10.001017
ORF1ab/nsp31347C1347YtGttAt1919AY.1030.000118
ORF1ab/nsp31347C1347YtGttAt1717AY.40.000026
ORF1ab/nsp31347C1347delTGT---1616B.1.1770.000211
ORF1ab/nsp31347C1347FtGttTt1414AY.1200.000521
ORF1ab/nsp31347C1347STgtAgt1013All0.000002
ORF1ab/nsp31347C1347StGttCt313All0.000001
ORF1ab/nsp31347C1347FtGttTt1212AY.430.000053
ORF1ab/nsp31347C1347CtgTtgC1212B.1.1.70.000011
ORF1ab/nsp31347C1347RTgtCgt1212B.1.1.70.000011
ORF1ab/nsp31347C1347YtGttAt1111AY.9.20.000404
ORF1ab/nsp31347C1347YtGttAt1010AY.440.000061
ORF1ab/nsp31347C1347WtgTtgG1010AY.46.10.010267
ORF1ab/nsp31347C1347WtgTtgG99AY.990.009444
ORF1ab/nsp31347C1347FtGttTt99B.10.000082
ORF1ab/nsp31347C1347FtGttTt99B.1.1770.000119
ORF1ab/nsp31347C1347delTGT---88AY.40.000012
ORF1ab/nsp31347C1347WtgTtgG88AY.70.001568
ORF1ab/nsp31347C1347YtGttAt88B.1.617.20.00003
ORF1ab/nsp31347C1347YtGttAt77AY.1200.00026
ORF1ab/nsp31347C1347FtGttTt77AY.420.000282
ORF1ab/nsp31347C1347CtgTtgC77B.1.10.000127
ORF1ab/nsp31347C1347FtGttTt77B.1.1600.000218
ORF1ab/nsp31347C1347FtGttTt77B.1.20.000062
ORF1ab/nsp31347C1347FtGttTt77P.10.00011
ORF1ab/nsp31347C1347FtGttTt66AY.1190.000212
ORF1ab/nsp31347C1347CtgTtgC66AY.40.000009
ORF1ab/nsp31347C1347YtGttAt66AY.4.20.00013
ORF1ab/nsp31347C1347delTGT---66AY.430.000027
ORF1ab/nsp31347C1347WtgTtgG66AY.98.10.000291
ORF1ab/nsp31347C1347WtgTtgG55AY.1190.000177
ORF1ab/nsp31347C1347FtGttTt55AY.330.000334
ORF1ab/nsp31347C1347delTGT---55AY.4.50.000537
ORF1ab/nsp31347C1347FtGttTt55AY.4.50.000537
ORF1ab/nsp31347C1347YtGttAt55AY.430.000022
ORF1ab/nsp31347C1347FtGttTt55AY.50.000103
ORF1ab/nsp31347C1347FtGttTt55B.1.1.10.001633
ORF1ab/nsp31347C1347YtGttAt55B.1.1.70.000004
ORF1ab/nsp31347C1347delTGT---55B.1.617.20.000019
ORF1ab/nsp31347C1347CtgTtgC55P.10.000079
ORF1ab/nsp31347C1347XtgTtgA34All0.000001
ORF1ab/nsp31347C1347XtGTtAG14All0
ORF1ab/nsp31347C1347FtGttTt44AY.200.000155
ORF1ab/nsp31347C1347YtGttAt44AY.200.000155
ORF1ab/nsp31347C1347FtGttTt44AY.340.000388
ORF1ab/nsp31347C1347FtGttTt44AY.390.000099
ORF1ab/nsp31347C1347WtgTtgG44AY.50.000083
ORF1ab/nsp31347C1347WtgTtgG44AY.920.001149
ORF1ab/nsp31347C1347FtGttTt44B.1.1.5190.000159
ORF1ab/nsp31347C1347CtgTtgC44B.1.1770.000053
ORF1ab/nsp31347C1347FtGttTt44B.1.2580.000266
ORF1ab/nsp31347C1347FtGttTt44B.1.6280.001409
ORF1ab/nsp31347C1347FtGttTt44R.10.00036
ORF1ab/nsp31347C1347GTgtGgt23All0
ORF1ab/nsp31347C1347GTgTGgG13All0
ORF1ab/nsp31347C1347YtGttAt33AY.1000.000138
ORF1ab/nsp31347C1347WtgTtgG33AY.230.000209
ORF1ab/nsp31347C1347CtgTtgC33AY.250.000018
ORF1ab/nsp31347C1347CtgTtgC33AY.430.000013
ORF1ab/nsp31347C1347WtgTtgG33AY.820.004071
ORF1ab/nsp31347C1347WtgTtgG33AY.840.001312
ORF1ab/nsp31347C1347FtGttTt33AY.99.20.000276
ORF1ab/nsp31347C1347delTGT---33B.10.000027
ORF1ab/nsp31347C1347FtGttTt33B.1.10.000054
ORF1ab/nsp31347C1347STgtAgt33B.1.1.70.000003
ORF1ab/nsp31347C1347FtGttTt33B.1.4260.003027
ORF1ab/nsp31347C1347FtGttTt33B.1.4290.000071
ORF1ab/nsp31347C1347CtgTtgC33B.1.617.20.000011
ORF1ab/nsp31347C1347del1Tgt-gt22All0
ORF1ab/nsp31347C1347WtgTtgG22AY.1000.000092
ORF1ab/nsp31347C1347FtGttTt22AY.1020.000053
ORF1ab/nsp31347C1347WtgTtgG22AY.1030.000012
ORF1ab/nsp31347C1347YtGttAt22AY.1090.001479
ORF1ab/nsp31347C1347WtgTtgG22AY.1140.000462
ORF1ab/nsp31347C1347WtgTtgG22AY.1160.000574
ORF1ab/nsp31347C1347CtgTtgC22AY.1180.000125
ORF1ab/nsp31347C1347delTGT---22AY.250.000012
ORF1ab/nsp31347C1347FtGttTt22AY.260.000057
ORF1ab/nsp31347C1347WtgTtgG22AY.320.001065
ORF1ab/nsp31347C1347FtGttTt22AY.39.10.000079
ORF1ab/nsp31347C1347GTgtGgt22AY.40.000003
ORF1ab/nsp31347C1347YtGttAt22AY.4.50.000215
ORF1ab/nsp31347C1347FtGttTt22AY.450.000243
ORF1ab/nsp31347C1347WtgTtgG22AY.460.000208
ORF1ab/nsp31347C1347FtGttTt22AY.470.000062
ORF1ab/nsp31347C1347WtgTtgG22AY.540.000191
ORF1ab/nsp31347C1347CtgTtgC22AY.540.000191
ORF1ab/nsp31347C1347FtGttTt22AY.630.000774
ORF1ab/nsp31347C1347FtGttTt22AY.770.002255
ORF1ab/nsp31347C1347FtGttTt22AY.9.10.000167
ORF1ab/nsp31347C1347YtGttAt22AY.99.20.000184
ORF1ab/nsp31347C1347CtgTtgC22B.10.000018
ORF1ab/nsp31347C1347delTGT---22B.1.10.000036
ORF1ab/nsp31347C1347STgtAgt12B.1.10.000018
ORF1ab/nsp31347C1347StGttCt12B.1.10.000018
ORF1ab/nsp31347C1347RTgtCgt12B.1.10.000018
ORF1ab/nsp31347C1347RTgTAgA12B.1.10.000018
ORF1ab/nsp31347C1347FtGttTt22B.1.177.100.001756
ORF1ab/nsp31347C1347delTGT---22B.1.177.160.001329
ORF1ab/nsp31347C1347delTGT---22B.1.177.560.001335
ORF1ab/nsp31347C1347FtGttTt22B.1.2210.000142
ORF1ab/nsp31347C1347FtGttTt22B.1.2430.000139
ORF1ab/nsp31347C1347CtgTtgC22B.1.438.10.000215
ORF1ab/nsp31347C1347StGttCt12B.1.617.20.000004
ORF1ab/nsp31347C1347STgtAgt12B.1.617.20.000004
ORF1ab/nsp31347C1347STgtAgt22B.1.6370.000146
ORF1ab/nsp31347C1347YtGttAt22N.40.008511
ORF1ab/nsp31347C1347FtGttTt22N.50.003534
ORF1ab/nsp31347C1347FtGttTt22P.1.140.000096
ORF1ab/nsp31347C1347FtGttTt110.055556
ORF1ab/nsp31347C1347YtGttAt110.055556
ORF1ab/nsp31347C1347delTGT---11AD.20.000219
ORF1ab/nsp31347C1347delTGT---11AH.30.003802
ORF1ab/nsp31347C1347ATGTGCG11All0
ORF1ab/nsp31347C1347ETGTGAG11All0
ORF1ab/nsp31347C1347delTGT---11AY.1000.000046
ORF1ab/nsp31347C1347YtGttAt11AY.1020.000027
ORF1ab/nsp31347C1347WtgTtgG11AY.1020.000027
ORF1ab/nsp31347C1347CtgTtgC11AY.1020.000027
ORF1ab/nsp31347C1347CtgTtgC11AY.1030.000006
ORF1ab/nsp31347C1347YtGttAt11AY.1040.001984
ORF1ab/nsp31347C1347WtgTtgG11AY.1050.000643
ORF1ab/nsp31347C1347FtGttTt11AY.1050.000643
ORF1ab/nsp31347C1347FtGttTt11AY.1110.000183
ORF1ab/nsp31347C1347FtGttTt11AY.1130.000142
ORF1ab/nsp31347C1347YtGttAt11AY.1130.000142
ORF1ab/nsp31347C1347FtGttTt11AY.1180.000063
ORF1ab/nsp31347C1347WtgTtgG11AY.1180.000063
ORF1ab/nsp31347C1347delTGT---11AY.1200.000037
ORF1ab/nsp31347C1347CtgTtgC11AY.1210.000135
ORF1ab/nsp31347C1347RTgtCgt11AY.140.000088
ORF1ab/nsp31347C1347FtGttTt11AY.160.00038
ORF1ab/nsp31347C1347YtGttAt11AY.16.10.00047
ORF1ab/nsp31347C1347delTGT---11AY.190.00114
ORF1ab/nsp31347C1347RTgtCgt11AY.200.000039
ORF1ab/nsp31347C1347CtgTtgC11AY.230.00007
ORF1ab/nsp31347C1347FtGttTt11AY.230.00007
ORF1ab/nsp31347C1347YtGttAt11AY.230.00007
ORF1ab/nsp31347C1347XtGTtAG11AY.250.000006
ORF1ab/nsp31347C1347STgtAgt11AY.250.000006
ORF1ab/nsp31347C1347YtGttAt11AY.260.000028
ORF1ab/nsp31347C1347RTgtCgt11AY.290.000016
ORF1ab/nsp31347C1347CtgTtgC11AY.290.000016
ORF1ab/nsp31347C1347YtGttAt11AY.30.00001
ORF1ab/nsp31347C1347FtGttTt11AY.3.10.000085
ORF1ab/nsp31347C1347WtgTtgG11AY.340.000097
ORF1ab/nsp31347C1347delTGT---11AY.360.000148
ORF1ab/nsp31347C1347FtGttTt11AY.360.000148
ORF1ab/nsp31347C1347YtGttAt11AY.360.000148
ORF1ab/nsp31347C1347delTGT---11AY.390.000025
ORF1ab/nsp31347C1347WtgTtgG11AY.390.000025
ORF1ab/nsp31347C1347STgtAgt11AY.40.000002
ORF1ab/nsp31347C1347WtgTtgG11AY.40.000002
ORF1ab/nsp31347C1347RTgtCgt11AY.40.000002
ORF1ab/nsp31347C1347XtgTtgA11AY.40.000002
ORF1ab/nsp31347C1347CtgTtgC11AY.4.20.000022
ORF1ab/nsp31347C1347FtGttTt11AY.4.20.000022
ORF1ab/nsp31347C1347WtgTtgG11AY.410.000294
ORF1ab/nsp31347C1347WtgTtgG11AY.420.00004
ORF1ab/nsp31347C1347RTgtCgt11AY.430.000004
ORF1ab/nsp31347C1347WtgTtgG11AY.440.000006
ORF1ab/nsp31347C1347FtGttTt11AY.460.000104
ORF1ab/nsp31347C1347YtGttAt11AY.460.000104
ORF1ab/nsp31347C1347delTGT---11AY.46.20.000635
ORF1ab/nsp31347C1347YtGttAt11AY.46.40.000165
ORF1ab/nsp31347C1347FtGttTt11AY.46.40.000165
ORF1ab/nsp31347C1347FtGttTt11AY.46.60.000072
ORF1ab/nsp31347C1347delTGT---11AY.50.000021
ORF1ab/nsp31347C1347FtGttTt11AY.500.000799
ORF1ab/nsp31347C1347WtgTtgG11AY.550.000917
ORF1ab/nsp31347C1347FtGttTt11AY.60.000041
ORF1ab/nsp31347C1347delTGT---11AY.60.000041
ORF1ab/nsp31347C1347delTGT---11AY.600.000938
ORF1ab/nsp31347C1347FtGttTt11AY.610.000105
ORF1ab/nsp31347C1347RTgtCgt11AY.610.000105
ORF1ab/nsp31347C1347YtGttAt11AY.640.000595
ORF1ab/nsp31347C1347delTGT---11AY.650.000533
ORF1ab/nsp31347C1347FtGttTt11AY.670.000464
ORF1ab/nsp31347C1347RTgtCgt11AY.680.000274
ORF1ab/nsp31347C1347FtGttTt11AY.70.000196
ORF1ab/nsp31347C1347del1Tgt-gt11AY.70.000196
ORF1ab/nsp31347C1347STgtAgt11AY.710.000475
ORF1ab/nsp31347C1347FtGttTt11AY.740.000116
ORF1ab/nsp31347C1347RTgtCgt11AY.740.000116
ORF1ab/nsp31347C1347delTGT---11AY.750.000056
ORF1ab/nsp31347C1347FtGttTt11AY.890.004902
ORF1ab/nsp31347C1347FtGttTt11AY.90.000068
ORF1ab/nsp31347C1347delTGT---11AY.90.000068
ORF1ab/nsp31347C1347CtgTtgC11AY.9.10.000084
ORF1ab/nsp31347C1347delTGT---11AY.9.10.000084
ORF1ab/nsp31347C1347FtGttTt11AY.9.20.000037
ORF1ab/nsp31347C1347delTGT---11AY.9.20.000037
ORF1ab/nsp31347C1347YtGttAt11AY.900.000684
ORF1ab/nsp31347C1347WtgTtgG11AY.910.00073
ORF1ab/nsp31347C1347WtgTtgG11AY.950.000761
ORF1ab/nsp31347C1347delTGT---11AY.99.10.001553
ORF1ab/nsp31347C1347CtgTtgC11AY.99.20.000092
ORF1ab/nsp31347C1347WtgTtgG11B0.000128
ORF1ab/nsp31347C1347YtGttAt11B.10.000009
ORF1ab/nsp31347C1347RTgtCgt11B.10.000009
ORF1ab/nsp31347C1347WtgTtgG11B.10.000009
ORF1ab/nsp31347C1347XtgTtgA11B.1.10.000018
ORF1ab/nsp31347C1347ETGTGAG11B.1.10.000018
ORF1ab/nsp31347C1347ATGTGCG11B.1.10.000018
ORF1ab/nsp31347C1347GTgTGgG11B.1.10.000018
ORF1ab/nsp31347C1347CtgTtgC11B.1.1.100.001115
ORF1ab/nsp31347C1347YtGttAt11B.1.1.2220.000204
ORF1ab/nsp31347C1347FtGttTt11B.1.1.2910.000742
ORF1ab/nsp31347C1347YtGttAt11B.1.1.3110.000358
ORF1ab/nsp31347C1347delTGT---11B.1.1.3110.000358
ORF1ab/nsp31347C1347delTGT---11B.1.1.3120.001912
ORF1ab/nsp31347C1347delTGT---11B.1.1.3480.000796
ORF1ab/nsp31347C1347delTGT---11B.1.1.3610.045455
ORF1ab/nsp31347C1347StGttCt11B.1.1.4090.002833
ORF1ab/nsp31347C1347delTGT---11B.1.1.4090.002833
ORF1ab/nsp31347C1347FtGttTt11B.1.1.500.000679
ORF1ab/nsp31347C1347FtGttTt11B.1.1.5130.012346
ORF1ab/nsp31347C1347CtgTtgC11B.1.1.5260.003546
ORF1ab/nsp31347C1347del1Tgt-gt11B.1.1.70.000001
ORF1ab/nsp31347C1347FtGttTt11B.1.1490.003425
ORF1ab/nsp31347C1347delTGT---11B.1.1600.000031
ORF1ab/nsp31347C1347RTgtCgt11B.1.160.90.007194
ORF1ab/nsp31347C1347delTGT---11B.1.177.150.000631
ORF1ab/nsp31347C1347delTGT---11B.1.177.180.00116
ORF1ab/nsp31347C1347delTGT---11B.1.177.40.000211
ORF1ab/nsp31347C1347delTGT---11B.1.177.60.000977
ORF1ab/nsp31347C1347FtGttTt11B.1.177.650.000665
ORF1ab/nsp31347C1347delTGT---11B.1.177.70.000165
ORF1ab/nsp31347C1347delTGT---11B.1.177.810.000189
ORF1ab/nsp31347C1347delTGT---11B.1.177.870.000728
ORF1ab/nsp31347C1347YtGttAt11B.1.20.000009
ORF1ab/nsp31347C1347YtGttAt11B.1.2010.005682
ORF1ab/nsp31347C1347FtGttTt11B.1.2100.002132
ORF1ab/nsp31347C1347CtgTtgC11B.1.214.10.02
ORF1ab/nsp31347C1347delTGT---11B.1.2210.000071
ORF1ab/nsp31347C1347YtGttAt11B.1.2210.000071
ORF1ab/nsp31347C1347YtGttAt11B.1.258.40.003448
ORF1ab/nsp31347C1347FtGttTt11B.1.3490.000715
ORF1ab/nsp31347C1347FtGttTt11B.1.3510.00003
ORF1ab/nsp31347C1347YtGttAt11B.1.3510.00003
ORF1ab/nsp31347C1347delTGT---11B.1.360.000146
ORF1ab/nsp31347C1347delTGT---11B.1.36.170.000494
ORF1ab/nsp31347C1347FtGttTt11B.1.36.180.00042
ORF1ab/nsp31347C1347RTgtCgt11B.1.4230.010204
ORF1ab/nsp31347C1347FtGttTt11B.1.4680.005714
ORF1ab/nsp31347C1347FtGttTt11B.1.5760.000907
ORF1ab/nsp31347C1347YtGttAt11B.1.5950.000261
ORF1ab/nsp31347C1347CtgTtgC11B.1.5960.000087
ORF1ab/nsp31347C1347YtGttAt11B.1.617.10.000129
ORF1ab/nsp31347C1347XtgTtgA11B.1.617.20.000004
ORF1ab/nsp31347C1347FtGttTt11B.1.6210.000089
ORF1ab/nsp31347C1347delTGT---11B.1.6210.000089
ORF1ab/nsp31347C1347delTGT---11B.1.6300.005236
ORF1ab/nsp31347C1347FtGttTt11B.290.003509
ORF1ab/nsp31347C1347CtgTtgC11B.400.000364
ORF1ab/nsp31347C1347delTGT---11B.400.000364
ORF1ab/nsp31347C1347YtGttAt11C.370.000116
ORF1ab/nsp31347C1347FtGttTt11C.370.000116
ORF1ab/nsp31347C1347FtGttTt11D.20.000075
ORF1ab/nsp31347C1347delTGT---11P.10.000016
ORF1ab/nsp31347C1347CtgTtgC11P.1.10.000318
ORF1ab/nsp31347C1347YtGttAt11P.1.140.000048
ORF1ab/nsp31347C1347FtGttTt11P.1.150.000232
ORF1ab/nsp31347C1347FtGttTt11P.1.160.000374
ORF1ab/nsp31347C1347delTGT---11Q.20.000613
ORF1ab/nsp31347C1347FtGttTt11Q.40.000455
ORF1ab/nsp31347C1347CtgTtgC11Q.80.000165

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.